LOCUS       NM_005663               2198 bp    mRNA    linear   PRI 04-OCT-2024
DEFINITION  Homo sapiens negative elongation factor complex member A (NELFA),
            mRNA.
ACCESSION   NM_005663
VERSION     NM_005663.5
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2198)
  AUTHORS   Ohe,S., Kubota,Y., Yamaguchi,K., Takagi,Y., Nashimoto,J.,
            Kozuka-Hata,H., Oyama,M., Furukawa,Y. and Takekawa,M.
  TITLE     ERK-mediated NELF-A phosphorylation promotes transcription
            elongation of immediate-early genes by releasing promoter-proximal
            pausing of RNA polymerase II
  JOURNAL   Nat Commun 13 (1), 7476 (2022)
   PUBMED   36463234
  REMARK    GeneRIF: ERK-mediated NELF-A phosphorylation promotes transcription
            elongation of immediate-early genes by releasing promoter-proximal
            pausing of RNA polymerase II.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2198)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   3  (bases 1 to 2198)
  AUTHORS   Rawat,P., Boehning,M., Hummel,B., Aprile-Garcia,F., Pandit,A.S.,
            Eisenhardt,N., Khavaran,A., Niskanen,E., Vos,S.M., Palvimo,J.J.,
            Pichler,A., Cramer,P. and Sawarkar,R.
  TITLE     Stress-induced nuclear condensation of NELF drives transcriptional
            downregulation
  JOURNAL   Mol Cell 81 (5), 1013-1026 (2021)
   PUBMED   33548202
  REMARK    GeneRIF: Stress-induced nuclear condensation of NELF drives
            transcriptional downregulation.
REFERENCE   4  (bases 1 to 2198)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   5  (bases 1 to 2198)
  AUTHORS   Xu,J., Wang,G., Gong,W., Guo,S., Li,D. and Zhan,Q.
  TITLE     The noncoding function of NELFA mRNA promotes the development of
            oesophageal squamous cell carcinoma by regulating the Rad17-RFC2-5
            complex
  JOURNAL   Mol Oncol 14 (3), 611-624 (2020)
   PUBMED   31845510
  REMARK    GeneRIF: The noncoding function of NELFA mRNA promotes the
            development of oesophageal squamous cell carcinoma by regulating
            the Rad17-RFC2-5 complex.
REFERENCE   6  (bases 1 to 2198)
  AUTHORS   Ping,Y.H. and Rana,T.M.
  TITLE     DSIF and NELF interact with RNA polymerase II elongation complex
            and HIV-1 Tat stimulates P-TEFb-mediated phosphorylation of RNA
            polymerase II and DSIF during transcription elongation
  JOURNAL   J Biol Chem 276 (16), 12951-12958 (2001)
   PUBMED   11112772
REFERENCE   7  (bases 1 to 2198)
  AUTHORS   Wright,T.J., Costa,J.L., Naranjo,C., Francis-West,P. and
            Altherr,M.R.
  TITLE     Comparative analysis of a novel gene from the
            Wolf-Hirschhorn/Pitt-Rogers-Danks syndrome critical region
  JOURNAL   Genomics 59 (2), 203-212 (1999)
   PUBMED   10409432
REFERENCE   8  (bases 1 to 2198)
  AUTHORS   Yamaguchi,Y., Takagi,T., Wada,T., Yano,K., Furuya,A., Sugimoto,S.,
            Hasegawa,J. and Handa,H.
  TITLE     NELF, a multisubunit complex containing RD, cooperates with DSIF to
            repress RNA polymerase II elongation
  JOURNAL   Cell 97 (1), 41-51 (1999)
   PUBMED   10199401
REFERENCE   9  (bases 1 to 2198)
  AUTHORS   Wright,T.J., Ricke,D.O., Denison,K., Abmayr,S., Cotter,P.D.,
            Hirschhorn,K., Keinanen,M., McDonald-McGinn,D., Somer,M.,
            Spinner,N., Yang-Feng,T., Zackai,E. and Altherr,M.R.
  TITLE     A transcript map of the newly defined 165 kb Wolf-Hirschhorn
            syndrome critical region
  JOURNAL   Hum Mol Genet 6 (2), 317-324 (1997)
   PUBMED   9063753
REFERENCE   10 (bases 1 to 2198)
  AUTHORS   Battaglia,A., Carey,J.C. and South,S.T.
  TITLE     Wolf-Hirschhorn Syndrome - RETIRED CHAPTER, FOR HISTORICAL
            REFERENCE ONLY
  JOURNAL   (in) Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE and
            Amemiya A (Eds.);
            GENEREVIEWS(R);
            (1993)
   PUBMED   20301362
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC002764.2 and AB044549.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 27, 2018 this sequence version replaced NM_005663.4.
            
            Summary: This gene is expressed ubiquitously with higher levels in
            fetal than in adult tissues. It encodes a protein sharing 93%
            sequence identity with the mouse protein. Wolf-Hirschhorn syndrome
            (WHS) is a malformation syndrome associated with a hemizygous
            deletion of the distal short arm of chromosome 4. This gene is
            mapped to the 165 kb WHS critical region, and may play a role in
            the phenotype of the WHS or Pitt-Rogers-Danks syndrome. The encoded
            protein is found to be capable of reacting with HLA-A2-restricted
            and tumor-specific cytotoxic T lymphocytes, suggesting a target for
            use in specific immunotherapy for a large number of cancer
            patients. This protein has also been shown to be a member of the
            NELF (negative elongation factor) protein complex that participates
            in the regulation of RNA polymerase II transcription elongation.
            [provided by RefSeq, Jul 2008].
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR3476690.510001.1, BC002764.2
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1968189,
                                           SAMEA1968968 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000382882.9/ ENSP00000372335.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1043              BC002764.2         2-1044
            1044-2198           AB044549.1         1092-2246
FEATURES             Location/Qualifiers
     source          1..2198
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4p16.3"
     gene            1..2198
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /note="negative elongation factor complex member A"
                     /db_xref="GeneID:7469"
                     /db_xref="HGNC:HGNC:12768"
                     /db_xref="MIM:606026"
     exon            1..225
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     CDS             16..1602
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /note="wolf-Hirschhorn syndrome candidate 2 protein"
                     /codon_start=1
                     /product="negative elongation factor A"
                     /protein_id="NP_005654.4"
                     /db_xref="CCDS:CCDS3358.3"
                     /db_xref="GeneID:7469"
                     /db_xref="HGNC:HGNC:12768"
                     /db_xref="MIM:606026"
                     /translation="MASMRESDTGLWLHNKLGATDELWAPPSIASLLTAAVIDNIRLC
                     FHGLSSAVKLKLLLGTLHLPRRTVDEMKGALMEIIQLASLDSDPWVLMVADILKSFPD
                     TGSLNLELEEQNPNVQDILGELREKVGECEASAMLPLECQYLNKNALTTLAGPLTPPV
                     KHFQLKRKPKSATLRAELLQKSTETAQQLKRSAGVPFHAKGRGLLRKMDTTTPLKGIP
                     KQAPFRSPTAPSVFSPTGNRTPIPPSRTLLRKERGVKLLDISELDMVGAGREAKRRRK
                     TLDAEVVEKPAKEETVVENATPDYAAGLVSTQKLGSLNNEPALPSTSYLPSTPSVVPA
                     SSYIPSSETPPAPSSREASRPPEEPSAPSPTLPAQFKQRAPMYNSGLSPATPTPAAPT
                     SPLTPTTPPAVAPTTQTPPVAMVAPQTQAPAQQQPKKNLSLTREQMFAAQEMFKTANK
                     VTRPEKALILGFMAGSRENPCQEQGDVIQIKLSEHTEDLPKADGQGSTTMLVDTVFEM
                     NYATGQWTRFKKYKPMTNVS"
     exon            226..397
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            398..559
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            560..649
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            650..780
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            781..850
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            851..939
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            940..1051
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..1317
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1318..1417
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     exon            1418..2198
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2173..2178
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /note="hexamer: ATTAAA"
     polyA_site      2198
                     /gene="NELFA"
                     /gene_synonym="NELF-A; P/OKcl.15; WHSC2"
                     /note="major polyA site"
ORIGIN      
        1 gcgctttccc ccaagatggc gtccatgcgg gagagcgaca cgggcctgtg gctgcacaac
       61 aagctggggg ccacggacga gctgtgggcg ccgcccagca tcgcgtccct gctcacggcc
      121 gcggtcatcg acaacatccg tctctgcttc catggcctct cgtcggcagt gaagctcaag
      181 ttgctactcg ggacgctgca cctcccgcgc cgcacggtgg acgagatgaa gggcgcccta
      241 atggagatca tccagctcgc cagcctcgac tcggacccct gggtgctcat ggtcgccgac
      301 atcttgaagt cctttccgga cacaggctcg cttaacctgg agctggagga gcagaatccc
      361 aacgttcagg atattttggg agaacttaga gaaaaggtgg gtgagtgtga agcgtctgcc
      421 atgctgccac tggagtgcca gtacttgaac aaaaacgccc tgacgaccct cgcgggaccc
      481 ctcactcccc cggtgaagca ttttcagtta aagcggaaac ccaagagcgc cacgctgcgg
      541 gcggagctgc tgcagaagtc cacggagacc gcccagcagt tgaagcggag cgccggggtg
      601 cccttccacg ccaagggccg ggggctgctg cggaagatgg acaccaccac cccactcaaa
      661 ggcatcccga agcaggcgcc cttcagaagc cccacggcgc ccagcgtctt cagccccaca
      721 gggaaccgga cccccatccc gccttccagg acgctgctgc ggaaggaacg aggtgtgaag
      781 ctgctggaca tctctgagct ggatatggtt ggcgctggcc gagaggcgaa gcggagaagg
      841 aagactctcg atgcggaggt ggtggagaag ccggccaagg aggaaacggt ggtggagaac
      901 gccaccccgg actacgcagc cggcctggtg tccacgcaga aacttgggtc cctgaacaat
      961 gagcctgcgc tgccctccac gagctacctt ccctccacgc ccagcgtggt tcccgcctcc
     1021 tcctacatcc ccagctccga gacgccccca gccccatctt cccgggaagc cagccgccca
     1081 ccagaggagc ccagcgcccc gagccccacg ttgccagcgc agttcaagca gcgggcgccc
     1141 atgtacaaca gcggcctgag ccctgccaca cccacgcctg cggcgcccac ctcgcctctg
     1201 acacccacca cacctccggc tgtcgcccct accactcaga cacccccggt tgccatggtg
     1261 gccccgcaga cccaggcccc tgctcagcag cagcctaaga agaacctgtc cctcacgaga
     1321 gagcagatgt tcgctgccca ggagatgttc aagacggcca acaaagtcac gcggcccgag
     1381 aaggccctca tcctgggctt catggccggc tcccgagaga acccgtgcca ggagcagggg
     1441 gacgtgatcc agatcaagct gagcgagcac acggaggacc tgcccaaggc ggacggccag
     1501 ggtagcacaa ccatgctggt ggacacagtg tttgagatga actatgccac gggccagtgg
     1561 acgcgcttca agaagtacaa gcccatgacc aatgtgtcct agaaccacct gcctcacagc
     1621 tggccgtcac ttgtgggggt ccacgggacg atggctttgc cagcttaaag taaccggatg
     1681 gcggacacct ggcccccgag gtcccccggc cgccgccctg ctgctgaccc agcctgtttt
     1741 aagttctgga tgcatttctc tggggtattt ggggcttatt tttaaaattt taatatgggt
     1801 tcttttttgt gtgatttaag acactttttg gactcaacgt tacatttttg aatgtagtaa
     1861 gtaaattaac caaaaaagtt acaacttcct aattttagtg acagctctgc ctgttagact
     1921 cttacttttt aaaatctttt ctattttccc tcgctggggc agtgccctcc tacccccagg
     1981 gttgagggga ccaaggtggc acggtggtac tgggggtgcg gcagggacac ccgaccacac
     2041 cagagcgtgg gagacggtgg gccttgtccc ctgcctgtgc ctgcctggga gttttgtatt
     2101 catcttttgt atagttgtgg acatttaaga cagtctttgg gtacctattt tcattgtaaa
     2161 actatctgaa ccattaaagt cgagcttttc taaagaaa
//
